GgaINT0021957 @ galGal3
Intron Retention
Gene
ENSGALG00000008294 | Q9DEX2_CHICK
Description
NA
Coordinates
chr12:19083651-19085960:+
Coord C1 exon
chr12:19083651-19083845
Coord A exon
chr12:19083846-19085708
Coord C2 exon
chr12:19085709-19085960
Length
1863 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAAC
5' ss Score
1.61
3' ss Seq
GTTTCTCCCTCTGTCCAAAGATA
3' ss Score
9.47
Exon sequences
Seq C1 exon
GCTGGTCCTCTCTCGATTTGAATTTGAAGAAGTGTCAAGTGGAGAAAATGCCTTGGAAGTTGGAGAAGATGAGGAAGAAGTGTGGCTATTCTGGAGAGACAGTAACAAGGAAATCCGCAGTAAGAGTATCAGAGAGTTGGCTCAGGATGCTAAGGAAGGGCAGAAGGAAGATCGGGACGTACTCAGCTATTACAG
Seq A exon
GTTAACAGCATGTGCAGTAGCTGACTAGCAAAGTTCATCTAAACTGTTGGGGGGGAGAGCCTTCAGTATATAGGCTTCAGTTAAATTTTGGGGGAAGGATGCTGGGTTCGTGGATGAAACAGCCATTAAAAAGTGACTCTCTTTGAGATGTGAGCTAAAAGTGTAAGGTTCATGGTTAGAAATCAAATTATCTGCATGGGAAAGTTTAAACTGATTTGAAAAGATTAGCTGAGGCTTAGAGTGCATTAAACTTGCACACCATTTAATGCCTGTATTTCTGCTTGGTTTCTGTGCAAATGGATGTTTACGCAGCCCGTATGCCAACTGTGTAGGTTACCGGTGTTGAAATGGTGGTTGGGGGTGAATAAGCACTGTGGATTTCAGTGTACAAATGCTTTTGCTTTTGATCGAAAGGAAAAAAAAAAAAATAGTTATTTAGCCCCTGCCCTCTGTGATTGAGCACTCCTGTAGTGTTCTGCAGTCATGTTTTGTAGTCCCACAGAATTCAGCAGGGCAGTGTATGAACTTAAAAAATGCCACTGATTGATGAATGCACTGTTCTTTCGTGCAGTTTGAGCTATGCTTTTAGCAGTTTCTAATGTGAAGTGATGTTTCCAGATGACTTGACAAGACACCAAGTTCTTGGCACAGTGTAAGATCAGGTTTCAGCCCAGACCAAATTCCTGTGTCTGGGTTTTAAACTTCTGAAAACAGTGTGACAGACTCAGCTGTGGTGGTACAGGGAGTACTGGGAGAGGGTTTTTTTGGTACTTTTTTTTTTTTTGCATTATCTCCTGCACTGAAATAATCTCAGTAGACTTCCCAGTGTGTTTTTAATTGAACCTATTGGAGGGCTGTATTTAAAAGATGATCTATAATACCAACTTCTGAAAATTATAGTTGCTTTCAAAATAGATTGTATTACACTTTCTTCTAAGCAGAATCGCTAGTGTTAGTTACTTTTAGCCCATGTTATAGTCTTATACACGTGCTTAAAACAACTAGAATCACAGAACCACAGGATGGCCTGGGTTGAAAAGGACCACAATGCTCATCTCATTCCAACCCCTGCTATGTGCAGGGTCGCCAACCAGCAGACCAGGCTGCCCAGAGCCACATCCAGCCTGGCCTTGAATGCCTGCAGGGATGGGGCATCCACAGCCTCCTTGGGCAACCTGTTCCATTACTGCTTAGTGTAGAGTTGGGTTGAACTACCATGAGGAGTGATTGGAGTTGAAAAGCACTCTGTTGTTGATTAAATGTTCATTTCTTCAGGAAATCTCATGGTTGACACTGCTCAGCACAAGTCTGTGTAGTATTTGTGAATGTTGGATGTTCATGACTGAAGGTTAACTATCAGTCTGTTGAATGTGCATAACTTAAATGCCAGTTATTTGCTCATACAGGCTGAAAAGCTAGGGAATAGTTAACTTTTCAGTTACTATCTCTTTGCCTGGAGGGAACTGAGCTCAGCACTTCTGAGCCATGTACCTATCTTTTAAGGATTCTGTAGTCCATTCTGTTGTTCCTCGGTGAACCACCATGATGTCAGCATTAGTAAGAAGTGTTTCATCTCCTACAGTATCCAGGCTGAGCTGCCTTAAGTGTTCTTTGGATTCTTACATAACTTTTATTAATAGTATTACTTCTGTATAACTCCTTGGAAAATGAGGAACCCTTTTCTTTTGTTCTTACACTGTTTCCACTTTTACTAGTGTTTGGTAAATACCTTTTTTTTCCCTTCTGAGTAAAGACTGGAAAATAGAAAATTCATCCATTGTTACTACACATGATAGCTTATCAATGCTCCAGGCAGCGGATGGTTCTGGAAATGTTTGTTTGTGTTTCTCCCTCTGTCCAAAG
Seq C2 exon
ATACCAGCTGAACCTCTTTGCCAGAATGTGCCTTGATCGGCAGTACTTGGCCATAAACGAGATTTCTGGCCAGCTGGACGTGGATCTCATTCTCCGCTGCATGTCTGATGAAAACTTGCCGTATGACCTGAGAGCGTCGTTCTGCCGGCTCATGCTGCACATGCACGTTGATCGTGACCCCCAGGAGCAGGTCACACCAGTGAAGTATGCACGGCTGTGGTCTGAGATACCTTCTGAAATCGCGATTGATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008294:ENSGALT00000013505:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0136516=RYDR_ITPR=PD(3.9=12.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGATGAGGAAGAAGTGTGGCT
R:
ACAGCCGTGCATACTTCACTG
Band lengths:
347-2210
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]